/**
 * UGENE - Integrated Bioinformatics Tools.
 * Copyright (C) 2008-2020 UniPro <ugene@unipro.ru>
 * http://ugene.net
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
 * MA 02110-1301, USA.
 */

#ifndef _U2_FASTQ_FORMAT_H_
#define _U2_FASTQ_FORMAT_H_

#include <QStringList>

#include <U2Core/BaseDocumentFormats.h>
#include <U2Core/DocumentModel.h>

#include "TextDocumentFormat.h"

namespace U2 {

class IOAdapter;
class DNASequence;

class U2FORMATS_EXPORT FastqFormat : public TextDocumentFormat {
    Q_OBJECT
public:
    FastqFormat(QObject *p);

    virtual void storeDocument(Document *d, IOAdapter *io, U2OpStatus &os);

    virtual bool isStreamingSupport() {
        return true;
    }

    virtual void storeEntry(IOAdapter *io, const QMap<GObjectType, QList<GObject *>> &objectsMap, U2OpStatus &os);

    static void writeEntry(const QString &seqName, const DNASequence &seq, IOAdapter *io, const QString &errorMessage, U2OpStatus &os, bool cutLines = true);

protected:
    virtual FormatCheckResult checkRawTextData(const QByteArray &rawData, const GUrl & = GUrl()) const;

    virtual DNASequence *loadTextSequence(IOAdapter *io, U2OpStatus &os);

    virtual Document *loadTextDocument(IOAdapter *io, const U2DbiRef &dbiRef, const QVariantMap &fs, U2OpStatus &os);
};

}    // namespace U2

#endif
